Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 67 of 167
Found at i:21230303 original size:47 final size:47
Alignment explanation
Indices: 21230247--21230401 Score: 310
Period size: 47 Copynumber: 3.3 Consensus size: 47
21230237 TATACTCAAG
21230247 ATAGATAAAATCTAAGAAAATAAATTGCATAAATTAGATAGAGAATT
1 ATAGATAAAATCTAAGAAAATAAATTGCATAAATTAGATAGAGAATT
21230294 ATAGATAAAATCTAAGAAAATAAATTGCATAAATTAGATAGAGAATT
1 ATAGATAAAATCTAAGAAAATAAATTGCATAAATTAGATAGAGAATT
21230341 ATAGATAAAATCTAAGAAAATAAATTGCATAAATTAGATAGAGAATT
1 ATAGATAAAATCTAAGAAAATAAATTGCATAAATTAGATAGAGAATT
21230388 ATAGATAAAATCTA
1 ATAGATAAAATCTA
21230402 TGTAGATTCT
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 108 1.00
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.28
Consensus pattern (47 bp):
ATAGATAAAATCTAAGAAAATAAATTGCATAAATTAGATAGAGAATT
Found at i:21234466 original size:19 final size:18
Alignment explanation
Indices: 21234430--21234468 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
21234420 TGAAATAATT
* *
21234430 TGGAAATGAAAATGGAAA
1 TGGAAAAGAAAAAGGAAA
21234448 TGGAAAAGAAAAAGAGAAA
1 TGGAAAAGAAAAAG-GAAA
21234467 TG
1 TG
21234469 ATTCATTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.28, T:0.13
Consensus pattern (18 bp):
TGGAAAAGAAAAAGGAAA
Found at i:21237809 original size:42 final size:42
Alignment explanation
Indices: 21237745--21237894 Score: 131
Period size: 42 Copynumber: 3.6 Consensus size: 42
21237735 AGATCCTGTA
* * * *
21237745 TAAGACCATATCTGGGATATGGCATTGATATAAGATTTTGTG
1 TAAGACCATATCTAGGACATGGCATCGATATAAGATTTCGTG
* * * * * *
21237787 TAAGACCATGTCTAGGACATGGCGTCGAAAGAAGAATTCGTA
1 TAAGACCATATCTAGGACATGGCATCGATATAAGATTTCGTG
* * * * ** *
21237829 TAAGACCATATCTGGGATATGGCATCGATGTGAGATCCCATG
1 TAAGACCATATCTAGGACATGGCATCGATATAAGATTTCGTG
*
21237871 TAAGA-CATGTCTAGGACATGGCAT
1 TAAGACCATATCTAGGACATGGCAT
21237895 TGGCATCTTA
Statistics
Matches: 82, Mismatches: 26, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
41 16 0.20
42 66 0.80
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (42 bp):
TAAGACCATATCTAGGACATGGCATCGATATAAGATTTCGTG
Found at i:21240052 original size:20 final size:20
Alignment explanation
Indices: 21240027--21240067 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
21240017 ATCAGAAAAG
21240027 AAAAGAGTTCCTTGAGCTGA
1 AAAAGAGTTCCTTGAGCTGA
21240047 AAAAGAGTTCCTTGAGCTGA
1 AAAAGAGTTCCTTGAGCTGA
21240067 A
1 A
21240068 GCAAGGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (20 bp):
AAAAGAGTTCCTTGAGCTGA
Found at i:21248684 original size:85 final size:85
Alignment explanation
Indices: 21248541--21248715 Score: 298
Period size: 85 Copynumber: 2.1 Consensus size: 85
21248531 ATGAATATTC
* * * *
21248541 TTGATGTTGTTCGATAAAGGTTTGAGGTGATAAAAGCTGGTTGGACCTTAGGAATACTTAGGGTA
1 TTGATATTGTTCGATAAAGATTTGAGGTGATAAAAGCTAGTTGGACCTTAGAAATACTTAGGGTA
21248606 TAAAAATTAAGACATTTGGG
66 TAAAAATTAAGACATTTGGG
21248626 TTGATATTGTTCGATAAAGATTTGAGGTGATAAAAG-TCAGTTGGACCTTAGAAATACTTAGGGT
1 TTGATATTGTTCGATAAAGATTTGAGGTGATAAAAGCT-AGTTGGACCTTAGAAATACTTAGGGT
21248690 ATAAAAATTAAGACATTTGGG
65 ATAAAAATTAAGACATTTGGG
21248711 TTGAT
1 TTGAT
21248716 GAGATCCCGT
Statistics
Matches: 85, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
84 1 0.01
85 84 0.99
ACGTcount: A:0.34, C:0.07, G:0.26, T:0.34
Consensus pattern (85 bp):
TTGATATTGTTCGATAAAGATTTGAGGTGATAAAAGCTAGTTGGACCTTAGAAATACTTAGGGTA
TAAAAATTAAGACATTTGGG
Found at i:21248819 original size:42 final size:42
Alignment explanation
Indices: 21248727--21248925 Score: 182
Period size: 42 Copynumber: 4.6 Consensus size: 42
21248717 AGATCCCGTA
*
21248727 TAAGACCATATCTGGGATATGGCATCGGCATTAGTATGAGTTATCATG
1 TAAGACCATATCTGGGATATGGCATC-G-A-TA-TAAGA-TT-TCATG
* **
21248775 TAAGACCATATCTGGGATATGGCATTGATATAAGATTTTGTG
1 TAAGACCATATCTGGGATATGGCATCGATATAAGATTTCATG
* ** * * * * *
21248817 TAAGACCATATCTGGGACATGGTGTCGAAATGAGAATTCGTA
1 TAAGACCATATCTGGGATATGGCATCGATATAAGATTTCATG
* * *
21248859 TAAGACCATATCTGGGATATGGCATCGATGTGAGATCTCATG
1 TAAGACCATATCTGGGATATGGCATCGATATAAGATTTCATG
* * *
21248901 TAAGTCCATGTCTGGGACATGGCAT
1 TAAGACCATATCTGGGATATGGCAT
21248926 TGGCATCTTA
Statistics
Matches: 126, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
42 91 0.72
43 2 0.02
44 4 0.03
45 2 0.02
46 1 0.01
47 1 0.01
48 25 0.20
ACGTcount: A:0.30, C:0.15, G:0.26, T:0.30
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCATCGATATAAGATTTCATG
Found at i:21252062 original size:22 final size:22
Alignment explanation
Indices: 21252037--21252082 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
21252027 ATCTATATGT
*
21252037 ATTCAAAATTAAT-CACCAACAC
1 ATTC-AAATTAATACACAAACAC
*
21252059 ATTCAATTTAATACACAAACAC
1 ATTCAAATTAATACACAAACAC
21252081 AT
1 AT
21252083 CTTTGGGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (22 bp):
ATTCAAATTAATACACAAACAC
Found at i:21254218 original size:12 final size:13
Alignment explanation
Indices: 21254203--21254231 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
21254193 CAAAACTTTC
21254203 ACACATACT-TAA
1 ACACATACTGTAA
21254215 ACACATACTGTAA
1 ACACATACTGTAA
21254228 ACAC
1 ACAC
21254232 GAAAAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.48, C:0.28, G:0.03, T:0.21
Consensus pattern (13 bp):
ACACATACTGTAA
Found at i:21264418 original size:46 final size:47
Alignment explanation
Indices: 21264366--21264683 Score: 162
Period size: 46 Copynumber: 6.8 Consensus size: 47
21264356 TCATTCGTGT
21264366 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACCACATTATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTA-GA
**
21264412 GAGCTAGTGTAAGACCATGTCTGGGACATGGCAT-G--GGCATTGAGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATT-AGA
* * * * * *
21264457 CAAGTGTAGAGTAAGA-CATGTCTCGGACAT-GCATCAACCTCA--AGA
1 -GAG-CTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTAGA
* * * * *
21264502 CGTAAGCCAATATAAGA-CATGTCTGGGAAAT-GCATCGACTACA--AGA
1 -G--AGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTAGA
* * * *
21264548 TGTGCTAGTGTAAGACCATGTCTGGGACATGGAATTG-GCACAGTTATGTGA
1 -GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACA-TTA---GA
* * * **
21264599 GAGATAATGTAAGACCATGTCTGGGACATGGCATC-AGCCTCGAAGATGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CCAC-ATTA-GA
* * * *
21264648 TAGCCAATGTAAGACCATGTTTGGGACATGGCATCG
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCG
21264684 GCACTTTATC
Statistics
Matches: 207, Mismatches: 43, Indels: 40
0.71 0.15 0.14
Matches are distributed among these distances:
44 9 0.04
45 30 0.14
46 65 0.31
47 26 0.13
48 7 0.03
49 34 0.16
50 30 0.14
51 5 0.02
52 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACCACATTAGA
Found at i:21267044 original size:68 final size:67
Alignment explanation
Indices: 21266998--21267223 Score: 407
Period size: 68 Copynumber: 3.3 Consensus size: 67
21266988 ATACTATATA
21266998 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
21267063 AAT
65 AAT
21267066 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
21267131 AAT
65 AAT
21267134 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGTGAGAGATA
1 GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACG-GAGAGATA
21267199 AAT
65 AAT
* *
21267202 GTAGCTAGGTCGCATGAGTGAT
1 GTAGCTAGGTCACATGTGTGAT
21267224 TCCAAGTGAA
Statistics
Matches: 156, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
68 156 1.00
ACGTcount: A:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (67 bp):
GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATGTAGACAAGAGAGCTACGGAGAGATAA
AT
Found at i:21267106 original size:38 final size:38
Alignment explanation
Indices: 21267064--21267175 Score: 91
Period size: 38 Copynumber: 3.2 Consensus size: 38
21267054 TGAGAGATAA
21267064 ATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCC
1 ATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCC
* * * **
21267102 ATGTAG--A---CA-A-GAGAGCTACGTGAGA-G-AT-AA
1 ATGTAGCTAGGTCACATGTGTGATACG-G-GATGTATCCC
21267132 ATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCC
1 ATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCC
21267170 ATGTAG
1 ATGTAG
21267176 ACAAGAGAGC
Statistics
Matches: 52, Mismatches: 10, Indels: 24
0.60 0.12 0.28
Matches are distributed among these distances:
30 6 0.12
31 9 0.17
32 4 0.08
33 4 0.08
35 4 0.08
36 4 0.08
37 9 0.17
38 12 0.23
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.26
Consensus pattern (38 bp):
ATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCC
Found at i:21267297 original size:66 final size:67
Alignment explanation
Indices: 21267032--21267297 Score: 183
Period size: 68 Copynumber: 3.9 Consensus size: 67
21267022 GGGATGTATC
* * * *
21267032 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-C--GGGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGACAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
* *
21267094 TGTATC-
62 AGGA-CA
* * * *
21267100 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATA-C--GGGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGACAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
* *
21267162 TGTATC-
62 AGGA-CA
* *
21267168 CCATGTAGACAAGAGAGCTACGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTAC--G-GAGACAAATG-AGCTAGGTCGCATGAGTGATACCAAGTGA
21267233 AGGACA
62 AGGACA
* *
21267239 CCATGTAGACAAGAGAGCTAC-GAGACAAATCG-GCTAGGTCGCATGAGTGGTACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGACAAAT-GAGCTAGGTCGCATGAGTGATACCAAGTG
21267298 TTCACCATGT
Statistics
Matches: 183, Mismatches: 10, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
66 24 0.13
67 8 0.04
68 123 0.67
69 1 0.01
70 1 0.01
71 26 0.14
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (67 bp):
CCATGTAGACAAGAGAGCTACGGAGACAAATGAGCTAGGTCGCATGAGTGATACCAAGTGAAGGA
CA
Found at i:21278221 original size:93 final size:93
Alignment explanation
Indices: 21278055--21278233 Score: 295
Period size: 93 Copynumber: 1.9 Consensus size: 93
21278045 TGGGTGATGT
*
21278055 GTGTGTCAGTGTAAGACCTGTCTGGGACACGGCATCGACACAGATAAGTGAGAGCCAATGTAAGA
1 GTGTGTCAGTGTAAGACCTGTCTAGGACACGGCATCGACACAGATAAGTGAGAGCCAATGTAAGA
21278120 CCTATCTGGGACATGGCATCGGCTTGAG
66 CCTATCTGGGACATGGCATCGGCTTGAG
* * * *
21278148 GTGTGTTAGTGTAAGACCTGTCTAGGACATGGCATCGACATAGATAAGTGAGAGCCAGTGTAAGA
1 GTGTGTCAGTGTAAGACCTGTCTAGGACACGGCATCGACACAGATAAGTGAGAGCCAATGTAAGA
* *
21278213 CTTGTCTGGGACATGGCATCG
66 CCTATCTGGGACATGGCATCG
21278234 ACTTAGATGT
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 79 1.00
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.23
Consensus pattern (93 bp):
GTGTGTCAGTGTAAGACCTGTCTAGGACACGGCATCGACACAGATAAGTGAGAGCCAATGTAAGA
CCTATCTGGGACATGGCATCGGCTTGAG
Found at i:21278241 original size:49 final size:48
Alignment explanation
Indices: 21278061--21278277 Score: 219
Period size: 49 Copynumber: 4.6 Consensus size: 48
21278051 ATGTGTGTGT
* *
21278061 CAGTGTAAGACCTGTCTGGGACACGGCATCGACACAGATAAGTGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATAGAT-AGTGAGAGC
* * * * * * *
21278110 CAATGTAAGACCTATCTGGGACATGGCATCGGC-TTG--AG-GTGTGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATAGATAGTGAGAGC
* *
21278154 TAGTGTAAGACCTGTCTAGGACATGGCATCGACATAGATAAGTGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATAGAT-AGTGAGAGC
* *
21278203 CAGTGTAAGACTTGTCTGGGACATGGCATCGACTTAGAT-GTGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATAGATAGTGAGAGC
* * * *
21278250 TAGTGTAAGGCCATGTTTGGAACATGGC
1 CAGTGTAAGACC-TGTCTGGGACATGGC
21278278 GTCGGCATCG
Statistics
Matches: 135, Mismatches: 27, Indels: 13
0.77 0.15 0.07
Matches are distributed among these distances:
44 31 0.23
45 4 0.03
47 17 0.13
48 16 0.12
49 67 0.50
ACGTcount: A:0.28, C:0.18, G:0.31, T:0.24
Consensus pattern (48 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACATAGATAGTGAGAGC
Found at i:21282973 original size:28 final size:28
Alignment explanation
Indices: 21282941--21283067 Score: 123
Period size: 28 Copynumber: 4.5 Consensus size: 28
21282931 TTCTCAAATT
* *
21282941 TCGCACACTCAGTGCCATCCTGGATGTC
1 TCGCACACTAAGTGCCATCCTGGATATC
* *
21282969 TCGCACACTAAGTGCCAT-TTGCAATAAT-
1 TCGCACACTAAGTGCCATCCTG-GAT-ATC
* * * *
21282997 TCGCACACTAAGTGCCATTTCTAGATGTT
1 TCGCACACTAAGTGCCA-TCCTGGATATC
*
21283026 TCGCACACTAAGTGCCATCTTGGATATC
1 TCGCACACTAAGTGCCATCCTGGATATC
*
21283054 TCGCGCACTAAGTG
1 TCGCACACTAAGTG
21283068 TCATTTTCAC
Statistics
Matches: 80, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
27 2 0.03
28 56 0.70
29 21 0.26
30 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (28 bp):
TCGCACACTAAGTGCCATCCTGGATATC
Found at i:21283038 original size:57 final size:56
Alignment explanation
Indices: 21282940--21283073 Score: 164
Period size: 57 Copynumber: 2.4 Consensus size: 56
21282930 ATTCTCAAAT
* * *
21282940 TTCGCACACTCAGTGCCA-TCCTGGATGTCTCGCACACTAAGTGCCAT-TTGCAATAA
1 TTCGCACACTAAGTGCCATTTCTAGATGTCTCGCACACTAAGTGCCATCTTG-AAT-A
* *
21282996 TTCGCACACTAAGTGCCATTTCTAGATGTTTCGCACACTAAGTGCCATCTTGGATA
1 TTCGCACACTAAGTGCCATTTCTAGATGTCTCGCACACTAAGTGCCATCTTGAATA
* *
21283052 TCTCGCGCACTAAGTGTCATTT
1 T-TCGCACACTAAGTGCCATTT
21283074 TCACAATCAA
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
56 19 0.28
57 46 0.68
58 3 0.04
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.31
Consensus pattern (56 bp):
TTCGCACACTAAGTGCCATTTCTAGATGTCTCGCACACTAAGTGCCATCTTGAATA
Found at i:21290481 original size:28 final size:28
Alignment explanation
Indices: 21290450--21290567 Score: 107
Period size: 28 Copynumber: 4.2 Consensus size: 28
21290440 ATCGTGCACA
* *
21290450 AAGTGCCATCCTGGATGTCTCGCACGCT
1 AAGTGCCATCCTGGATATCTCGCACACT
* *
21290478 AAGTGCCAT-TTGCAATAAT-TCGCACACT
1 AAGTGCCATCCTG-GAT-ATCTCGCACACT
* * *
21290506 AAGTGCCATTTCTGGATGTTTCGCACACT
1 AAGTGCCA-TCCTGGATATCTCGCACACT
*
21290535 AAGTGCCATCTTGGATATCTCG-AGCACT
1 AAGTGCCATCCTGGATATCTCGCA-CACT
21290563 AAGTG
1 AAGTG
21290568 TCATTTTCAC
Statistics
Matches: 73, Mismatches: 11, Indels: 12
0.76 0.11 0.12
Matches are distributed among these distances:
27 3 0.04
28 47 0.64
29 21 0.29
30 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (28 bp):
AAGTGCCATCCTGGATATCTCGCACACT
Found at i:21290563 original size:57 final size:58
Alignment explanation
Indices: 21290445--21290573 Score: 151
Period size: 57 Copynumber: 2.3 Consensus size: 58
21290435 GATGTATCGT
* * *
21290445 GCACAAAGTGCCA-TCCTGGATGTCTCGCACGCTAAGTGCCATTTGCAATAATTCGCA
1 GCACTAAGTGCCATTTCTGGATGTCTCGCACACTAAGTGCCATTTGCAATAATTCGCA
* *
21290502 -CACTAAGTGCCATTTCTGGATGTTTCGCACACTAAGTGCCATCTTG-GAT-ATCTCG-A
1 GCACTAAGTGCCATTTCTGGATGTCTCGCACACTAAGTGCCAT-TTGCAATAAT-TCGCA
*
21290558 GCACTAAGTGTCATTT
1 GCACTAAGTGCCATTT
21290574 TCACAATCAG
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
56 14 0.23
57 45 0.73
58 3 0.05
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (58 bp):
GCACTAAGTGCCATTTCTGGATGTCTCGCACACTAAGTGCCATTTGCAATAATTCGCA
Found at i:21301233 original size:3 final size:3
Alignment explanation
Indices: 21301225--21302050 Score: 1643
Period size: 3 Copynumber: 275.3 Consensus size: 3
21301215 TATTGAAGAA
21301225 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
21301273 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
21301321 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
21301369 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
21301417 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
21301465 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
21301513 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
21301561 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
21301609 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
21301657 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
21301705 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
21301753 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
21301801 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
21301849 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
21301897 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
21301945 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
21301993 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
21302041 TCT TCT TCT T
1 TCT TCT TCT T
21302051 TTATGCTTTA
Statistics
Matches: 821, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 821 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:21302124 original size:30 final size:28
Alignment explanation
Indices: 21302068--21302133 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
21302058 TTATTTAATC
*
21302068 TGTTTATTTCTAGGTTTTGCAAAGTTTA
1 TGTTTGTTTCTAGGTTTTGCAAAGTTTA
21302096 TGTTTGTTTCTAGGTTTTGCATAAAGTTTA
1 TGTTTGTTTCTAGGTTTTGC--AAAGTTTA
*
21302126 TGCTTGTT
1 TGTTTGTT
21302134 GTTCGTTAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 19 0.56
30 15 0.44
ACGTcount: A:0.18, C:0.08, G:0.20, T:0.55
Consensus pattern (28 bp):
TGTTTGTTTCTAGGTTTTGCAAAGTTTA
Found at i:21304062 original size:30 final size:30
Alignment explanation
Indices: 21304028--21304085 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
21304018 TTTTCGAGCA
*
21304028 TAGGGGTAAAATGGTCATTTTGCCAAAGTC
1 TAGGGGCAAAATGGTCATTTTGCCAAAGTC
*
21304058 TAGGGGCAAAATGGTCATTTTGCTAAAG
1 TAGGGGCAAAATGGTCATTTTGCCAAAG
21304086 ATGTGGATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.12, G:0.28, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTTTGCCAAAGTC
Found at i:21304133 original size:52 final size:52
Alignment explanation
Indices: 21304071--21304174 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
21304061 GGGCAAAATG
21304071 GTCATTTTGCTAAAGATGTGGATTTATGATTGAATAATTGTAATTAGTGACT
1 GTCATTTTGCTAAAGATGTGGATTTATGATTGAATAATTGTAATTAGTGACT
*
21304123 GTCATTTTGCTAAATATGTGGATTTATGATTGAATAATTGTAATTAGTGACT
1 GTCATTTTGCTAAAGATGTGGATTTATGATTGAATAATTGTAATTAGTGACT
21304175 AAATGAGTAC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (52 bp):
GTCATTTTGCTAAAGATGTGGATTTATGATTGAATAATTGTAATTAGTGACT
Found at i:21304586 original size:47 final size:46
Alignment explanation
Indices: 21304476--21304600 Score: 160
Period size: 48 Copynumber: 2.7 Consensus size: 46
21304466 TTACTTGTGC
* * * **
21304476 GCCAGTGTAAGGCATGTCTGGGACATGCATCGGCGTAGAGATGAGT
1 GCCAGTATAAGACATGTCTGGGACATGCATCAGCACAGAGATGAGT
* * *
21304522 GCTAGTATAAAACCATGTCTAGGACATGGCATCAGCACAGAGATGAGT
1 GCCAGTATAAGA-CATGTCTGGGACAT-GCATCAGCACAGAGATGAGT
21304570 GCCAGTATAAGACATGTCTGGGACATGCATC
1 GCCAGTATAAGACATGTCTGGGACATGCATC
21304601 GGCCTCGATG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
46 13 0.20
47 26 0.39
48 27 0.41
ACGTcount: A:0.30, C:0.19, G:0.30, T:0.22
Consensus pattern (46 bp):
GCCAGTATAAGACATGTCTGGGACATGCATCAGCACAGAGATGAGT
Found at i:21304614 original size:47 final size:47
Alignment explanation
Indices: 21304476--21304791 Score: 204
Period size: 47 Copynumber: 6.7 Consensus size: 47
21304466 TTACTTGTGC
* * *
21304476 GCCAGTGTAAGGCATGTCTGGGACATGCATCGGCGTAGA-GATGAGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGAGT
* * * * * *
21304522 GCTAGTATAAAACCATGTCTAGGACATGGCATCAGCAC-AGA-GATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGATGATGAGT
*
21304570 GCCAGTATAAGACATGTCTGGGACATGCATCGGCCTCGATGATGA-T
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGAGT
* * * * ** * *
21304616 AGACAGTGTAAGACGTGTCTAGGATACACATCGG-CT--AAGA-GTTGT
1 -GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATG-AGT
* * * *
21304661 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCC-CG-TGTATACGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATG-AT--GAGT
* * *
21304709 GCTAGTATAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATG-CT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGATGATGAGT
*
21304757 AGCCAGTGTAAGACCATGTCTGAGACATGGCATCG
1 -GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCG
21304792 ATAACTTATC
Statistics
Matches: 209, Mismatches: 41, Indels: 37
0.73 0.14 0.13
Matches are distributed among these distances:
43 1 0.00
44 27 0.13
45 4 0.02
46 21 0.10
47 57 0.27
48 39 0.19
49 46 0.22
50 8 0.04
51 4 0.02
52 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGATGATGAGT
Found at i:21305097 original size:11 final size:11
Alignment explanation
Indices: 21305081--21305115 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
21305071 TTATGCTTAC
21305081 TCTCTTTCCTT
1 TCTCTTTCCTT
*
21305092 TCTCTTTCATT
1 TCTCTTTCCTT
*
21305103 TCTCTTTTCTT
1 TCTCTTTCCTT
21305114 TC
1 TC
21305116 AATGCCGCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.03, C:0.31, G:0.00, T:0.66
Consensus pattern (11 bp):
TCTCTTTCCTT
Found at i:21305609 original size:55 final size:55
Alignment explanation
Indices: 21305550--21305656 Score: 151
Period size: 55 Copynumber: 1.9 Consensus size: 55
21305540 TCAGTGTTGA
* * *
21305550 ACACGGGTAGGCCACACGGGCGTGTGCCATGGCCGTGTCTTAAAGTCAGTATCGT
1 ACACGGGCAGGCCACACGGGCATGTGCCATGGCCATGTCTTAAAGTCAGTATCGT
* * * *
21305605 ACACGGGCAGGTCGCACGGGCATGTGCCATGGCCATGTGTTGAAGTCAGTAT
1 ACACGGGCAGGCCACACGGGCATGTGCCATGGCCATGTCTTAAAGTCAGTAT
21305657 TGCACATGGG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.21, C:0.24, G:0.34, T:0.21
Consensus pattern (55 bp):
ACACGGGCAGGCCACACGGGCATGTGCCATGGCCATGTCTTAAAGTCAGTATCGT
Found at i:21305721 original size:19 final size:19
Alignment explanation
Indices: 21305678--21305721 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
21305668 TAAGGGCATA
21305678 GGCGTGCCCAAGCCACACG
1 GGCGTGCCCAAGCCACACG
** * *
21305697 AACGTGCGCAAGCCATACG
1 GGCGTGCCCAAGCCACACG
21305716 GGCGTG
1 GGCGTG
21305722 TGGAGCCTAA
Statistics
Matches: 19, Mismatches: 6, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.23, C:0.34, G:0.34, T:0.09
Consensus pattern (19 bp):
GGCGTGCCCAAGCCACACG
Found at i:21307842 original size:32 final size:32
Alignment explanation
Indices: 21307804--21307887 Score: 107
Period size: 32 Copynumber: 2.6 Consensus size: 32
21307794 TTAAAATTTT
*
21307804 AGTTTGTTGGATTTTGAAATTATTATGTCTTGA
1 AGTTTGTTGGATATTGAAATTATTATGT-TTGA
* * *
21307837 A-TTTGTTAGATATTGAATTTATTATGTTTTA
1 AGTTTGTTGGATATTGAAATTATTATGTTTGA
*
21307868 AGCTTGTTGGATATTGAAAT
1 AGTTTGTTGGATATTGAAAT
21307888 GATTGACAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
31 4 0.09
32 38 0.88
33 1 0.02
ACGTcount: A:0.27, C:0.02, G:0.19, T:0.51
Consensus pattern (32 bp):
AGTTTGTTGGATATTGAAATTATTATGTTTGA
Found at i:21316030 original size:40 final size:39
Alignment explanation
Indices: 21315986--21316085 Score: 96
Period size: 40 Copynumber: 2.5 Consensus size: 39
21315976 AAAGAATGCA
* *
21315986 AAAATTTCTAAGGGCATATTCTTA-AATATTTTGATATTTC
1 AAAATTTCTAA-GGCATATACATACAA-ATTTTGATATTTC
* *
21316026 AAAATATCTAA-GCATACGTACATACAAATTTTGGTATTTC
1 AAAATTTCTAAGGCATA--TACATACAAATTTTGATATTTC
21316066 AAAATTTCTAAAGAGCATAT
1 AAAATTTCT-AAG-GCATAT
21316086 CACTAGCTAT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
38 5 0.10
40 34 0.69
41 5 0.10
43 5 0.10
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (39 bp):
AAAATTTCTAAGGCATATACATACAAATTTTGATATTTC
Found at i:21319990 original size:45 final size:43
Alignment explanation
Indices: 21319941--21320028 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 43
21319931 ATGGAGTTGG
*
21319941 TAGGCAACAGTTCGTTGGAGAGGTTGGAGCTGCTTGAAGGGAAA
1 TAGGCAACAGTTCGTCGGAGAGGTTGGAGCTGCTT-AAGGGAAA
*
21319985 NTAGGCAACAGTTCGTCGGAGAGGTTGGAGCTGCTTACGGGAAA
1 -TAGGCAACAGTTCGTCGGAGAGGTTGGAGCTGCTTAAGGGAAA
21320029 GAGATGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 7 0.17
45 34 0.83
ACGTcount: A:0.26, C:0.14, G:0.38, T:0.22
Consensus pattern (43 bp):
TAGGCAACAGTTCGTCGGAGAGGTTGGAGCTGCTTAAGGGAAA
Found at i:21320465 original size:19 final size:20
Alignment explanation
Indices: 21320441--21320485 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
21320431 CAACTATTTT
21320441 TATGTAAGTATGCAA-TACA
1 TATGTAAGTATGCAAGTACA
* *
21320460 TATGTATGTATGCAAGTATA
1 TATGTAAGTATGCAAGTACA
21320480 TATGTA
1 TATGTA
21320486 TTTCGTAAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 14 0.61
20 9 0.39
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (20 bp):
TATGTAAGTATGCAAGTACA
Found at i:21323767 original size:28 final size:28
Alignment explanation
Indices: 21323704--21323767 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 28
21323694 TTTTAATTTA
*
21323704 ATAAT-TTTCAATTAAAATTATAAATAG
1 ATAATATTTAAATTAAAATTATAAATAG
* *
21323731 ATCATTATTTAAATT-AAATTATAAATTAT
1 AT-AATATTTAAATTAAAATTATAAA-TAG
21323760 ATAATATT
1 ATAATATT
21323768 CATGTCTCAG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
27 2 0.07
28 17 0.57
29 11 0.37
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (28 bp):
ATAATATTTAAATTAAAATTATAAATAG
Found at i:21324112 original size:31 final size:31
Alignment explanation
Indices: 21324076--21324140 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 31
21324066 TTCTAACGTG
* * *
21324076 GCATGCCACGTTAGCACCATTTTTCATGTCA
1 GCATGCCACATCAGCACCATTTATCATGTCA
* *
21324107 GCATGCTACATCAGCATCATTTATCATGTCA
1 GCATGCCACATCAGCACCATTTATCATGTCA
21324138 GCA
1 GCA
21324141 AAATTAACGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (31 bp):
GCATGCCACATCAGCACCATTTATCATGTCA
Found at i:21324446 original size:17 final size:18
Alignment explanation
Indices: 21324424--21324462 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
21324414 CACTACAATT
*
21324424 TTTTTAAATAAATT-TTA
1 TTTTTAAAAAAATTATTA
21324441 TTTTTAAAAAAATTATTA
1 TTTTTAAAAAAATTATTA
21324459 TTTT
1 TTTT
21324463 ATTAGTAGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 13 0.65
18 7 0.35
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTTAAAAAAATTATTA
Found at i:21325009 original size:19 final size:21
Alignment explanation
Indices: 21324976--21325014 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
21324966 TCGTATGTTT
*
21324976 TTTATATTTAGATATTTTATG
1 TTTATATTTAGATATATTATG
21324997 TTTAT-TTTA-ATATATTAT
1 TTTATATTTAGATATATTAT
21325015 TATTGTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 4 0.24
21 5 0.29
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (21 bp):
TTTATATTTAGATATATTATG
Found at i:21325910 original size:13 final size:13
Alignment explanation
Indices: 21325892--21325920 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
21325882 GGACATGGCT
21325892 GTGTGGCCAGCCC
1 GTGTGGCCAGCCC
21325905 GTGTGGCCAGCCC
1 GTGTGGCCAGCCC
21325918 GTG
1 GTG
21325921 GGGTTCCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.34, G:0.41, T:0.17
Consensus pattern (13 bp):
GTGTGGCCAGCCC
Found at i:21327730 original size:10 final size:10
Alignment explanation
Indices: 21327715--21327749 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
21327705 AAAACCCTAT
21327715 TTTTTCTTTC
1 TTTTTCTTTC
21327725 TTTTTCTTTCCC
1 TTTTTCTTT--C
21327737 TTTTTCTTTC
1 TTTTTCTTTC
21327747 TTT
1 TTT
21327750 CTTTCCATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 13 0.57
12 10 0.43
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:21327739 original size:12 final size:11
Alignment explanation
Indices: 21327715--21327792 Score: 54
Period size: 12 Copynumber: 6.8 Consensus size: 11
21327705 AAAACCCTAT
21327715 TTTTTCTTT-C
1 TTTTTCTTTCC
21327725 TTTTTCTTTCCC
1 TTTTTCTTT-CC
*
21327737 TTTTTCTTTCT
1 TTTTTCTTTCC
21327748 TTCTTTCCATGTT-C
1 TT-TTT-C-T-TTCC
* *
21327762 TGTTTC-GTCC
1 TTTTTCTTTCC
21327772 TTCTTTCTTTCC
1 TT-TTTCTTTCC
21327784 TTTTTCTTT
1 TTTTTCTTT
21327793 ATTTTATTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 17
0.70 0.08 0.22
Matches are distributed among these distances:
9 1 0.02
10 11 0.21
11 14 0.26
12 19 0.36
13 4 0.08
14 2 0.04
15 2 0.04
ACGTcount: A:0.01, C:0.26, G:0.04, T:0.69
Consensus pattern (11 bp):
TTTTTCTTTCC
Found at i:21327818 original size:8 final size:8
Alignment explanation
Indices: 21327805--21327842 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
21327795 TTTATTTCTT
21327805 TTATTATA
1 TTATTATA
21327813 TTATTA-A
1 TTATTATA
*
21327820 CTATTATA
1 TTATTATA
21327828 TTATTATAA
1 TTATTAT-A
21327837 TTATTA
1 TTATTA
21327843 ATTTCTTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 6 0.23
8 13 0.50
9 7 0.27
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (8 bp):
TTATTATA
Found at i:21330279 original size:92 final size:92
Alignment explanation
Indices: 21330122--21330401 Score: 560
Period size: 92 Copynumber: 3.0 Consensus size: 92
21330112 CCTTTGTCTG
21330122 GGATAAACTCGAAAGTCGTTGGAGGCACCTCCTATGCAGACAGGTCAGGCAGGATGGCAACTCGT
1 GGATAAACTCGAAAGTCGTTGGAGGCACCTCCTATGCAGACAGGTCAGGCAGGATGGCAACTCGT
21330187 TCTCCCAGACACGCAACATGCGCTCGA
66 TCTCCCAGACACGCAACATGCGCTCGA
21330214 GGATAAACTCGAAAGTCGTTGGAGGCACCTCCTATGCAGACAGGTCAGGCAGGATGGCAACTCGT
1 GGATAAACTCGAAAGTCGTTGGAGGCACCTCCTATGCAGACAGGTCAGGCAGGATGGCAACTCGT
21330279 TCTCCCAGACACGCAACATGCGCTCGA
66 TCTCCCAGACACGCAACATGCGCTCGA
21330306 GGATAAACTCGAAAGTCGTTGGAGGCACCTCCTATGCAGACAGGTCAGGCAGGATGGCAACTCGT
1 GGATAAACTCGAAAGTCGTTGGAGGCACCTCCTATGCAGACAGGTCAGGCAGGATGGCAACTCGT
21330371 TCTCCCAGACACGCAACATGCGCTCGA
66 TCTCCCAGACACGCAACATGCGCTCGA
21330398 GGAT
1 GGAT
21330402 GTATACCTCA
Statistics
Matches: 188, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 188 1.00
ACGTcount: A:0.27, C:0.28, G:0.28, T:0.17
Consensus pattern (92 bp):
GGATAAACTCGAAAGTCGTTGGAGGCACCTCCTATGCAGACAGGTCAGGCAGGATGGCAACTCGT
TCTCCCAGACACGCAACATGCGCTCGA
Found at i:21331547 original size:12 final size:12
Alignment explanation
Indices: 21331530--21331555 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21331520 CAACTCAATG
21331530 ACAATCCTCGGC
1 ACAATCCTCGGC
21331542 ACAATCCTCGGC
1 ACAATCCTCGGC
21331554 AC
1 AC
21331556 GTACTCCCGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.42, G:0.15, T:0.15
Consensus pattern (12 bp):
ACAATCCTCGGC
Found at i:21333907 original size:24 final size:26
Alignment explanation
Indices: 21333880--21333928 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
21333870 ACAAACATTA
*
21333880 AACTAAC-AAATAA-TTTATAATAAT
1 AACTAACAAAATAACTTTAAAATAAT
21333904 AACTAACAAAATAACTTTAAAATAA
1 AACTAACAAAATAACTTTAAAATAA
21333929 ATTAAAAAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 6 0.27
26 9 0.41
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (26 bp):
AACTAACAAAATAACTTTAAAATAAT
Found at i:21334087 original size:22 final size:20
Alignment explanation
Indices: 21334040--21334088 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 20
21334030 ATACATTATC
*
21334040 CTTCTTTTTTCTTCTCCTTT
1 CTTCTTTTTTCTTCTCCTCT
21334060 CTTTCTTTCTTTCTTCTCCCTCT
1 C-TTCTTT-TTTCTTCT-CCTCT
21334083 CTTCTT
1 CTTCTT
21334089 CATTTTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 6 0.24
22 13 0.52
23 5 0.20
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (20 bp):
CTTCTTTTTTCTTCTCCTCT
Found at i:21334341 original size:20 final size:19
Alignment explanation
Indices: 21334316--21334357 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
21334306 CACCACTAAT
* *
21334316 AAAATAATATGTTTTTAAAA
1 AAAATAAAAT-TTATTAAAA
21334336 AAAATAAAATTTATTAAAA
1 AAAATAAAATTTATTAAAA
21334355 AAA
1 AAA
21334358 TGGTGGTGTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (19 bp):
AAAATAAAATTTATTAAAA
Found at i:21339001 original size:32 final size:32
Alignment explanation
Indices: 21338965--21339028 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
21338955 TAGGATACTA
21338965 AATGTATGTTTATTATCTGTATATAAGCATGT
1 AATGTATGTTTATTATCTGTATATAAGCATGT
*
21338997 AATGTATGTTTGTTATCTGTATATAAGCATGT
1 AATGTATGTTTATTATCTGTATATAAGCATGT
21339029 GGAGCATGTC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.06, G:0.17, T:0.47
Consensus pattern (32 bp):
AATGTATGTTTATTATCTGTATATAAGCATGT
Found at i:21339293 original size:13 final size:14
Alignment explanation
Indices: 21339269--21339299 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
21339259 GGGGTAGGAT
21339269 TCTGTGTATCTGTA
1 TCTGTGTATCTGTA
21339283 TCTGT-TATCTGTA
1 TCTGTGTATCTGTA
21339296 TCTG
1 TCTG
21339300 AATTGGACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.13, C:0.16, G:0.19, T:0.52
Consensus pattern (14 bp):
TCTGTGTATCTGTA
Found at i:21342908 original size:22 final size:22
Alignment explanation
Indices: 21342861--21342910 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
21342851 ACTCATTAGT
* *
21342861 TTATAATATAGATTTTTAGGAT
1 TTATAATATAAATTTTTAGGAC
*
21342883 TTATAATATAAATTGTTTATG-C
1 TTATAATATAAATT-TTTAGGAC
21342905 TTATAA
1 TTATAA
21342911 CACAATCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (22 bp):
TTATAATATAAATTTTTAGGAC
Found at i:21347873 original size:7 final size:7
Alignment explanation
Indices: 21347863--21347895 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
21347853 TTGGGGTAGA
21347863 TGGGAGG
1 TGGGAGG
21347870 TGGGAGG
1 TGGGAGG
21347877 TGGGAGG
1 TGGGAGG
21347884 TGGGAGG
1 TGGGAGG
21347891 TGGGA
1 TGGGA
21347896 TGGGATGGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.70, T:0.15
Consensus pattern (7 bp):
TGGGAGG
Found at i:21352207 original size:2 final size:2
Alignment explanation
Indices: 21352200--21352236 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
21352190 TTATTTCAAA
21352200 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
21352237 TATATATATG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:21352588 original size:17 final size:17
Alignment explanation
Indices: 21352566--21352598 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
21352556 CCTCATAAGG
21352566 TTAGTAATTATAACATA
1 TTAGTAATTATAACATA
21352583 TTAGTAATTATAACAT
1 TTAGTAATTATAACAT
21352599 TACATGTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (17 bp):
TTAGTAATTATAACATA
Found at i:21368012 original size:122 final size:123
Alignment explanation
Indices: 21367792--21368039 Score: 444
Period size: 122 Copynumber: 2.0 Consensus size: 123
21367782 TATTTTTACC
*
21367792 CCATGTTTAAAGCATTTTATGGATGATTTTCCATTAGAATTGGTGAATTCGATGTTCCTAATGCT
1 CCATGTTTAAAGCATTTTATGGATGATTTTCCATTAGAATTGGTGAATTCGATGCTCCTAATGCT
* *
21367857 TTAATTTCATGTTTTATACTTAGGAGAGCATAGGAGAGCGAAAGGATCGAGAAACG-G
66 TTAATTTCATGTTTTATACTTAGGAAAGCATAGGAGAGCGAAAGGAACGAGAAACGAG
*
21367914 CCATGTTTAAAGCATTTTATGGATGATTTTCCATTAGAATTGGTGAATTCGATGCTCTTAATGCT
1 CCATGTTTAAAGCATTTTATGGATGATTTTCCATTAGAATTGGTGAATTCGATGCTCCTAATGCT
*
21367979 TTAATTTCATGTTTTATACTTAGGAAAGTATAGGAGAGCGAAAGGAACGAGAAACGAG
66 TTAATTTCATGTTTTATACTTAGGAAAGCATAGGAGAGCGAAAGGAACGAGAAACGAG
21368037 CCA
1 CCA
21368040 AAAACGGAGA
Statistics
Matches: 120, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
122 116 0.97
123 4 0.03
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.34
Consensus pattern (123 bp):
CCATGTTTAAAGCATTTTATGGATGATTTTCCATTAGAATTGGTGAATTCGATGCTCCTAATGCT
TTAATTTCATGTTTTATACTTAGGAAAGCATAGGAGAGCGAAAGGAACGAGAAACGAG
Found at i:21373930 original size:42 final size:41
Alignment explanation
Indices: 21373816--21373931 Score: 128
Period size: 42 Copynumber: 2.8 Consensus size: 41
21373806 CATAGTACCG
* *
21373816 TATCAATGCCATATCCCGAATATGGTCTTACATGAAATATCA
1 TATCGATGCCATATCCCG-ATATGGTCTTATATGAAATATCA
* * *
21373858 TATCGATGCCATGTCCTTGACATGGTCTTATATGAAATCA-CA
1 TATCGATGCCATATCC-CGATATGGTCTTATATGAAAT-ATCA
21373900 TA-CTGATGCCATATCCCAGATATGGTCTTATA
1 TATC-GATGCCATATCCC-GATATGGTCTTATA
21373932 CAGAATCTCT
Statistics
Matches: 62, Mismatches: 8, Indels: 8
0.79 0.10 0.10
Matches are distributed among these distances:
41 1 0.02
42 59 0.95
43 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.33
Consensus pattern (41 bp):
TATCGATGCCATATCCCGATATGGTCTTATATGAAATATCA
Found at i:21375989 original size:20 final size:20
Alignment explanation
Indices: 21375961--21376002 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
21375951 AGGGTGCGAG
*
21375961 ATTCCGGAGTATCTAATATT
1 ATTCCGGAGTATCTAACATT
*
21375981 ATTCTGGAGTATCTAACATT
1 ATTCCGGAGTATCTAACATT
21376001 AT
1 AT
21376003 ATGAGATATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.40
Consensus pattern (20 bp):
ATTCCGGAGTATCTAACATT
Found at i:21376065 original size:96 final size:96
Alignment explanation
Indices: 21375901--21376080 Score: 324
Period size: 96 Copynumber: 1.9 Consensus size: 96
21375891 CGAGAGTGAG
* *
21375901 CATTATATGAGATATGAGATTGAAATAGCTTCGGCCTTGTATTGGCACTTAGGGTGCGAGATTCC
1 CATTATATGAGATATGAGATTGAAATAGCTTCGGCCTTGTATTGACACTTAAGGTGCGAGATTCC
21375966 GGAGTATCTAATATTATTCTGGAGTATCTAA
66 GGAGTATCTAATATTATTCTGGAGTATCTAA
* *
21375997 CATTATATGAGATATGAGATTGAAATAGCTTCGGCCTTGTATTGACTCTTAAGGTGCGAGATTTC
1 CATTATATGAGATATGAGATTGAAATAGCTTCGGCCTTGTATTGACACTTAAGGTGCGAGATTCC
21376062 GGAGTATCTAATATTATTC
66 GGAGTATCTAATATTATTC
21376081 CAAATGGTTC
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 80 1.00
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (96 bp):
CATTATATGAGATATGAGATTGAAATAGCTTCGGCCTTGTATTGACACTTAAGGTGCGAGATTCC
GGAGTATCTAATATTATTCTGGAGTATCTAA
Found at i:21385737 original size:43 final size:43
Alignment explanation
Indices: 21385682--21385764 Score: 157
Period size: 43 Copynumber: 1.9 Consensus size: 43
21385672 TCAATGCTTA
21385682 CATTTTGGTTTGGGATTACCGACACTACCAACACTGGTTACAG
1 CATTTTGGTTTGGGATTACCGACACTACCAACACTGGTTACAG
*
21385725 CATTTTGGTTTGGGATTACCGACACTACCCACACTGGTTA
1 CATTTTGGTTTGGGATTACCGACACTACCAACACTGGTTA
21385765 TAGAAGGAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (43 bp):
CATTTTGGTTTGGGATTACCGACACTACCAACACTGGTTACAG
Found at i:21387155 original size:21 final size:21
Alignment explanation
Indices: 21387105--21387156 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
21387095 ATGGTCCAAG
* *
21387105 GGACACGCCCGTGTGACCCTA
1 GGACACGCTCATGTGACCCTA
*
21387126 GCACACGCTCATGTGACCCTA
1 GGACACGCTCATGTGACCCTA
21387147 GGACACGCTC
1 GGACACGCTC
21387157 GTTTTACAGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.38, G:0.25, T:0.15
Consensus pattern (21 bp):
GGACACGCTCATGTGACCCTA
Found at i:21395087 original size:48 final size:48
Alignment explanation
Indices: 21394952--21395125 Score: 182
Period size: 47 Copynumber: 3.7 Consensus size: 48
21394942 CATACAGTGT
* *
21394952 AATGTCGATGCCATGTCCCAGACATGGCCTTACACTGGCT-TACATCAC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATCAC
* * * * * *
21395000 GAGGCCGATG-CATGTCCCAAACAT-GTCTTACACTAGCTCTCGTCTC
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCAC
21395046 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-A-
1 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCAC
* *
21395092 ATGTGGCTGATG-CATGTCCCAGACAT-GTCTTACA
1 A-AT-GCCGATGCCATGTCCCAGACATGGTCTTACA
21395126 ATAGCACACA
Statistics
Matches: 105, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
46 33 0.31
47 42 0.40
48 30 0.29
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (48 bp):
AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCAC
Found at i:21395118 original size:94 final size:94
Alignment explanation
Indices: 21394952--21395130 Score: 270
Period size: 94 Copynumber: 1.9 Consensus size: 94
21394942 CATACAGTGT
* *
21394952 AATGTCGATGCCATGTCCCAGACATGGCCTTACACTGGCTTACATCACGAGGCCGATGCATGTCC
1 AATGCCGATGCCATGTCCCAGACATGGCCTTACACTGGCTTACATAACGAGGCCGATGCATGTCC
*
21395017 CAAACATGTCTTACACTAGCTCTCGTCTC
66 CAAACATGTCTTACAATAGCTCTCGTCTC
* * * *
21395046 AATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAATGTGGCTGATGCATGTC
1 AATGCCGATGCCATGTCCCAGACATGGCCTTACACTGGCT-TACATAACGAGGCCGATGCATGTC
*
21395110 CCAGACATGTCTTACAATAGC
65 CCAAACATGTCTTACAATAGC
21395131 ACACAATTAA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
94 75 0.99
95 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (94 bp):
AATGCCGATGCCATGTCCCAGACATGGCCTTACACTGGCTTACATAACGAGGCCGATGCATGTCC
CAAACATGTCTTACAATAGCTCTCGTCTC
Found at i:21403583 original size:20 final size:21
Alignment explanation
Indices: 21403544--21403583 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21403534 GTTTTAATGG
21403544 CCACACGAGCGTGTTGCCCTT
1 CCACACGAGCGTGTTGCCCTT
*
21403565 CCACACGGGCGTG-TGCCCT
1 CCACACGAGCGTGTTGCCCT
21403584 GCTTCAAGTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.12, C:0.40, G:0.28, T:0.20
Consensus pattern (21 bp):
CCACACGAGCGTGTTGCCCTT
Found at i:21413609 original size:46 final size:46
Alignment explanation
Indices: 21413542--21413759 Score: 382
Period size: 46 Copynumber: 4.7 Consensus size: 46
21413532 AACCCGCCCC
* * *
21413542 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
21413588 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
21413634 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
21413680 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
21413726 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
21413760 TGCTCAACCA
Statistics
Matches: 169, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 169 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:21415271 original size:17 final size:18
Alignment explanation
Indices: 21415240--21415274 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
21415230 TAAAATAATA
*
21415240 ATAAAAATAATAATTTAG
1 ATAAAAATAAGAATTTAG
21415258 ATAAAAAT-AGAATTTAG
1 ATAAAAATAAGAATTTAG
21415275 GAAAAAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.09, T:0.31
Consensus pattern (18 bp):
ATAAAAATAAGAATTTAG
Found at i:21415759 original size:10 final size:10
Alignment explanation
Indices: 21415743--21415773 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
21415733 TTATAAAAAT
21415743 ATTTAATATA
1 ATTTAATATA
*
21415753 TTTTAATATA
1 ATTTAATATA
21415763 ATTTAATATA
1 ATTTAATATA
21415773 A
1 A
21415774 AATAATTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
ATTTAATATA
Found at i:21422180 original size:45 final size:45
Alignment explanation
Indices: 21422109--21422226 Score: 114
Period size: 45 Copynumber: 2.5 Consensus size: 45
21422099 CCTGAGCTGA
* * * * *
21422109 TGAACAGTAAGCTC-TATTGAGATGAAACGGTAAGCTC-TATTGAGC
1 TGAATAGTAAGCTCATA-CGAGCTGAAACAGTAAGCTCTTA-CGAGC
21422154 TGAATAGTAAGCTCATACGAGCTGAAACAGTAAGCTCTTACGAGC
1 TGAATAGTAAGCTCATACGAGCTGAAACAGTAAGCTCTTACGAGC
*
21422199 TGATATATCGGTAAGCTCATACAAGCTG
1 TGA-ATA---GTAAGCTCATACGAGCTG
21422227 TGATTAGTCC
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
45 37 0.61
46 7 0.11
49 17 0.28
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (45 bp):
TGAATAGTAAGCTCATACGAGCTGAAACAGTAAGCTCTTACGAGC
Found at i:21422195 original size:23 final size:23
Alignment explanation
Indices: 21422102--21422201 Score: 98
Period size: 23 Copynumber: 4.3 Consensus size: 23
21422092 AGCTCCTCCT
*
21422102 GAGCTGATGAACAGTAAGCTCTATT
1 GAGCTGA--AACAGTAAGCTCTATC
* * *
21422127 GAGATGAAACGGTAAGCTCTATT
1 GAGCTGAAACAGTAAGCTCTATC
*
21422150 GAGCTG-AATAGTAAGCTC-ATAC
1 GAGCTGAAACAGTAAGCTCTAT-C
21422172 GAGCTGAAACAGTAAGCTCT-TAC
1 GAGCTGAAACAGTAAGCTCTAT-C
21422195 GAGCTGA
1 GAGCTGA
21422202 TATATCGGTA
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
21 2 0.03
22 16 0.25
23 41 0.63
25 6 0.09
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCTATC
Found at i:21422225 original size:26 final size:23
Alignment explanation
Indices: 21422102--21422226 Score: 94
Period size: 23 Copynumber: 5.3 Consensus size: 23
21422092 AGCTCCTCCT
*
21422102 GAGCTGATGAACAGTAAGCTC-TATT
1 GAGCTGA--AACAGTAAGCTCATA-C
* * *
21422127 GAGATGAAACGGTAAGCTC-TATT
1 GAGCTGAAACAGTAAGCTCATA-C
*
21422150 GAGCTG-AATAGTAAGCTCATAC
1 GAGCTGAAACAGTAAGCTCATAC
*
21422172 GAGCTGAAACAGTAAGCTCTTAC
1 GAGCTGAAACAGTAAGCTCATAC
*
21422195 GAGCTGATATATCGGTAAGCTCATAC
1 GAGCTGA-A-A-CAGTAAGCTCATAC
*
21422221 AAGCTG
1 GAGCTG
21422227 TGATTAGTCC
Statistics
Matches: 84, Mismatches: 11, Indels: 9
0.81 0.11 0.09
Matches are distributed among these distances:
22 16 0.19
23 43 0.51
24 1 0.01
25 7 0.08
26 17 0.20
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.25
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCATAC
Found at i:21425468 original size:48 final size:48
Alignment explanation
Indices: 21425403--21425523 Score: 197
Period size: 48 Copynumber: 2.5 Consensus size: 48
21425393 CGACATTGAT
*
21425403 ATATGATCCCATGTAAGACCATATCTGGGACATGGCATTGGCATCGAC
1 ATATGATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCGAC
* * *
21425451 CTATGATCCCATGTAAGACCATGTGTAGGACATGGCATTGGCATCGAC
1 ATATGATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCGAC
*
21425499 ATGTGATCCCATGTAAGACCATATC
1 ATATGATCCCATGTAAGACCATATC
21425524 CTGATATGGC
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 65 1.00
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (48 bp):
ATATGATCCCATGTAAGACCATATCTAGGACATGGCATTGGCATCGAC
Found at i:21426009 original size:8 final size:8
Alignment explanation
Indices: 21425996--21426025 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
21425986 GGTATAGTGA
21425996 ATTTAAGT
1 ATTTAAGT
21426004 ATTTAAGT
1 ATTTAAGT
21426012 ATTTTAAGT
1 A-TTTAAGT
21426021 ATTTA
1 ATTTA
21426026 CTTGGTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.53
Consensus pattern (8 bp):
ATTTAAGT
Found at i:21428789 original size:49 final size:50
Alignment explanation
Indices: 21428709--21428941 Score: 281
Period size: 49 Copynumber: 4.7 Consensus size: 50
21428699 ATCTATTGTG
* *
21428709 AGGTCACGTGTGTAATACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * *
21428759 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-TT
* * * * * ** **
21428809 CGATCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* *
21428859 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACGGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
21428909 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTA
21428942 TGCGTACTAG
Statistics
Matches: 153, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
49 72 0.47
50 45 0.29
51 36 0.24
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:21428906 original size:101 final size:98
Alignment explanation
Indices: 21428712--21428941 Score: 289
Period size: 100 Copynumber: 2.3 Consensus size: 98
21428702 TATTGTGAGG
* ** *
21428712 TCACGTGTGTAATACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCACATGTGTAGTACT
*
21428777 AAGTGCAGGCTACTATGCGTACCCGATAACTTCGA
66 AAGTGCAGGCTACTACGCGTACCCGATAA-TT-GA
* * ** *
21428812 TCACGTATGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTAC
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATT-GGTCACATGTGTAGTAC
* ** *
21428877 TAAGTGCAGGCTACTACGTGTACGGGATAATTGG
65 TAAGTGCAGGCTACTACGCGTACCCGATAATTGA
* *
21428911 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTA
21428942 TGCGTACTAG
Statistics
Matches: 112, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
99 29 0.26
100 42 0.38
101 41 0.37
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (98 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCCGATAATTGA
Found at i:21436676 original size:20 final size:21
Alignment explanation
Indices: 21436640--21436681 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
21436630 TGAATGGATT
21436640 TGATATGTTTTTGAAGTTTTA
1 TGATATGTTTTTGAAGTTTTA
21436661 TGATA-GTTTGTT-AAGTTTTA
1 TGATATGTTT-TTGAAGTTTTA
21436681 T
1 T
21436682 TGTTAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.24, C:0.00, G:0.19, T:0.57
Consensus pattern (21 bp):
TGATATGTTTTTGAAGTTTTA
Found at i:21449338 original size:44 final size:44
Alignment explanation
Indices: 21449255--21449339 Score: 125
Period size: 44 Copynumber: 1.9 Consensus size: 44
21449245 ACATGTATCA
* * *
21449255 CATCCATTATAAACTCGGACCAACTCAACAAGTTTGGATGCTCG
1 CATCCATAATAAACTCGGACCAACTCAACAAGCTCGGATGCTCG
* *
21449299 CATCCATAATGAACTCGGACCAACTCAACGAGCTCGGATGC
1 CATCCATAATAAACTCGGACCAACTCAACAAGCTCGGATGC
21449340 CTCATATATA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (44 bp):
CATCCATAATAAACTCGGACCAACTCAACAAGCTCGGATGCTCG
Found at i:21456258 original size:29 final size:27
Alignment explanation
Indices: 21456240--21456309 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
21456230 ATATTAAGTC
21456240 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
21456267 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
21456295 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
21456310 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:21456303 original size:28 final size:28
Alignment explanation
Indices: 21456240--21456337 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
21456230 ATATTAAGTC
*
21456240 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
21456267 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
21456295 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
21456324 CGCACACTTAGTGC
1 CGCACACTTAGTGC
21456338 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:21467120 original size:153 final size:156
Alignment explanation
Indices: 21466947--21467413 Score: 638
Period size: 153 Copynumber: 3.0 Consensus size: 156
21466937 CTCAGCTATA
* * * *
21466947 TAGGCATTAGCGGCGCTTCCTGAAAATGCCGCAATATATAGAGAATT-AGCGGCATTTTTTATAA
1 TAGGCTTTAGCGGCGCTTCCTGTAAACGCCGCAATATATCGAGAATTCA-CGGCATTTTTTATAA
* *
21467011 AATGCCACAATAGGTGAAGCATTAGTGGCGGTTGTCTAAAACGCCACAAAAGTTTTGAGAAATAC
65 AATGCCACAATAGGTGAAGCATTAGCGGCGGTTGTCTAAAACGCCATAAAAGTTTTGAGAAATAC
*
21467076 TACGTCGTGCATTGGTGAGCTGT-A-G
130 GACGTCGTGCATTGGTGAGCTGTAAGG
**
21467101 -AGGCTTTAGCGGCGCTTCCTGTAAACGCCGCAATATATCGAGAATTCACGGTGTTTTTTATAAA
1 TAGGCTTTAGCGGCGCTTCCTGTAAACGCCGCAATATATCGAGAATTCACGGCATTTTTTATAAA
21467165 ATGCCACAATAGGTGAAGCATTAGCGGCGGTTGTCTAAAACGCCATAAAAGTTTTGAGAAATACG
66 ATGCCACAATAGGTGAAGCATTAGCGGCGGTTGTCTAAAACGCCATAAAAGTTTTGAGAAATACG
21467230 ACGTCGTGCATTGGTGAGCTGTAGAGG
131 ACGTCGTGCATTGGTGAGCTGTA-AGG
* **
21467257 CTTTAGCGGCTTTAGCGGCGCTTCCTGTAAACGCTGCAATATATCGAGAATTCACGGTGTTTTTT
1 ---TA--GGCTTTAGCGGCGCTTCCTGTAAACGCCGCAATATATCGAGAATTCACGG-CATTTTT
* * * * *
21467322 TCTAAAACGCCACAATAGGTGAAGCATTAGCGACGGTTGTTTAAAAACGCCGTAAAAGTTTTGAG
60 TATAAAATGCCACAATAGGTGAAGCATTAGCGGCGGTTGTCT-AAAACGCCATAAAAGTTTTGAG
* *
21467387 AAAAACGACGTCGT-CTTTTGGTGAGCT
124 AAATACGACGTCGTGC-ATTGGTGAGCT
21467414 ATAGGGGCAT
Statistics
Matches: 281, Mismatches: 19, Indels: 16
0.89 0.06 0.05
Matches are distributed among these distances:
153 140 0.50
154 1 0.00
155 1 0.00
156 1 0.00
160 1 0.00
162 49 0.17
163 44 0.16
164 44 0.16
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (156 bp):
TAGGCTTTAGCGGCGCTTCCTGTAAACGCCGCAATATATCGAGAATTCACGGCATTTTTTATAAA
ATGCCACAATAGGTGAAGCATTAGCGGCGGTTGTCTAAAACGCCATAAAAGTTTTGAGAAATACG
ACGTCGTGCATTGGTGAGCTGTAAGG
Found at i:21469252 original size:40 final size:40
Alignment explanation
Indices: 21469196--21469320 Score: 146
Period size: 40 Copynumber: 3.1 Consensus size: 40
21469186 CGGAATTTAA
** *
21469196 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21469236 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
21469276 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
21469316 CCGGA
1 CCGGA
21469321 CATCATTCGA
Statistics
Matches: 73, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 64 0.88
41 8 0.11
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21472593 original size:40 final size:40
Alignment explanation
Indices: 21472548--21472626 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
21472538 CGTCACTATA
*
21472548 AATGACAAACTCTTTGCCTGATTCGGGTTGCACTAAAATC
1 AATGACAAACTCTTTGCCTGATTCAGGTTGCACTAAAATC
21472588 AATGACAAACTCTTTGCCTGATTCAGGTTGCACTAAAAT
1 AATGACAAACTCTTTGCCTGATTCAGGTTGCACTAAAAT
21472627 TGGAGCTTCA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (40 bp):
AATGACAAACTCTTTGCCTGATTCAGGTTGCACTAAAATC
Found at i:21476334 original size:79 final size:82
Alignment explanation
Indices: 21476223--21476407 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
21476213 GCTACTCGTT
* *
21476223 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
21476286 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
21476303 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
21476366 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
21476383 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21476408 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:21476407 original size:40 final size:40
Alignment explanation
Indices: 21476204--21476407 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
21476194 CGGAATTTAA
** *
21476204 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21476244 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
21476284 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
21476323 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
21476363 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
21476403 CCGGA
1 CCGGA
21476408 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:21484235 original size:40 final size:40
Alignment explanation
Indices: 21484175--21484472 Score: 356
Period size: 40 Copynumber: 7.5 Consensus size: 40
21484165 AAATCACGTA
* * **
21484175 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGGACTTAACCCGGATATAG-TAACTCGCACAAATG
* *
21484214 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
*
21484254 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
*
21484294 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
* *
21484334 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATG
1 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
* *
21484374 CCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATG
1 CCTTCGGGACTTAACCCGGATA-TAGTAACTCGCACAAATG
** * * *
21484413 CCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA-G
1 CCTTCGGGA-CTTAACCCGGATATAGTAAC-TCGCACAAATG
*
21484453 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
21484473 CATCATTCGA
Statistics
Matches: 231, Mismatches: 20, Indels: 15
0.87 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 42 0.18
40 175 0.76
41 12 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAACCCGGATATAGTAACTCGCACAAATG
Found at i:21484463 original size:119 final size:120
Alignment explanation
Indices: 21484208--21484472 Score: 374
Period size: 119 Copynumber: 2.2 Consensus size: 120
21484198 GCTACTCGTT
*
21484208 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* * *
21484273 ATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 AATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCA
* * * *
21484328 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* ** * *
21484392 AATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
66 AATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAGTAAC-TAGCA
21484448 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
21484473 CATCATTCGA
Statistics
Matches: 129, Mismatches: 14, Indels: 5
0.87 0.09 0.03
Matches are distributed among these distances:
118 3 0.02
119 68 0.53
120 58 0.45
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
AATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAGTAACTAGCA
Found at i:21485664 original size:56 final size:56
Alignment explanation
Indices: 21485597--21485716 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
21485587 TATTAGTTTA
21485597 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
21485653 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
21485709 TTGCCCAT
1 TTGCCCAT
21485717 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:21486297 original size:7 final size:7
Alignment explanation
Indices: 21486287--21486355 Score: 61
Period size: 7 Copynumber: 9.9 Consensus size: 7
21486277 TTGGGGATAT
21486287 GGTTTAG
1 GGTTTAG
21486294 GGTTTAG
1 GGTTTAG
*
21486301 GGTTTAT
1 GGTTTAG
**
21486308 AATTTAG
1 GGTTTAG
*
21486315 GG-AT-G
1 GGTTTAG
*
21486320 GGCTTAG
1 GGTTTAG
21486327 GGTTTAG
1 GGTTTAG
21486334 GGTTTTAG
1 GG-TTTAG
21486342 GGTTTTAG
1 GG-TTTAG
21486350 GGTTTA
1 GGTTTA
21486356 AAGTATAATT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
5 3 0.06
6 2 0.04
7 30 0.60
8 15 0.30
ACGTcount: A:0.17, C:0.01, G:0.38, T:0.43
Consensus pattern (7 bp):
GGTTTAG
Found at i:21486342 original size:8 final size:8
Alignment explanation
Indices: 21486323--21486354 Score: 57
Period size: 8 Copynumber: 4.1 Consensus size: 8
21486313 AGGGATGGGC
21486323 TTAGGG-T
1 TTAGGGTT
21486330 TTAGGGTT
1 TTAGGGTT
21486338 TTAGGGTT
1 TTAGGGTT
21486346 TTAGGGTT
1 TTAGGGTT
21486354 T
1 T
21486355 AAAGTATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.12, C:0.00, G:0.38, T:0.50
Consensus pattern (8 bp):
TTAGGGTT
Found at i:21486404 original size:15 final size:15
Alignment explanation
Indices: 21486384--21486413 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21486374 TAATTTAGAC
21486384 GATAAATATAAATAA
1 GATAAATATAAATAA
*
21486399 GATAAATATATATAA
1 GATAAATATAAATAA
21486414 ATTATTATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
GATAAATATAAATAA
Found at i:21487280 original size:45 final size:43
Alignment explanation
Indices: 21487223--21487315 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 43
21487213 TTCCTTTTGC
21487223 TCCCCTAATTCCCCAAACTCGAAATCCCTAACATTTTCCCCAAA
1 TCCCCTAATTCCCCAAACTC-AAATCCCTAACATTTTCCCCAAA
* * * **
21487267 TCCCCTATTTTCCCCATAGTCATTTCCCTAACATTTTCCCCAAA
1 TCCCCTA-ATTCCCCAAACTCAAATCCCTAACATTTTCCCCAAA
21487311 TCCCC
1 TCCCC
21487316 CCATGTTCCC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
44 33 0.77
45 10 0.23
ACGTcount: A:0.26, C:0.42, G:0.02, T:0.30
Consensus pattern (43 bp):
TCCCCTAATTCCCCAAACTCAAATCCCTAACATTTTCCCCAAA
Found at i:21487340 original size:45 final size:44
Alignment explanation
Indices: 21487247--21487342 Score: 138
Period size: 45 Copynumber: 2.2 Consensus size: 44
21487237 AAACTCGAAA
* * *
21487247 TCCCTAACATTTTCCCCAAATCCCCTATTTTCCCCATAGTCATT
1 TCCCTAACATTTTCCCCAAATCCCCCATGTTCCCCATACTCATT
**
21487291 TCCCTAACATTTTCCCCAAATCCCCCCATGTTCCCCATACTTTTT
1 TCCCTAACATTTTCCCCAAAT-CCCCCATGTTCCCCATACTCATT
21487336 TCCCTAA
1 TCCCTAA
21487343 ATCTGTTCCC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 21 0.46
45 25 0.54
ACGTcount: A:0.22, C:0.41, G:0.02, T:0.35
Consensus pattern (44 bp):
TCCCTAACATTTTCCCCAAATCCCCCATGTTCCCCATACTCATT
Found at i:21490489 original size:105 final size:106
Alignment explanation
Indices: 21490304--21490866 Score: 861
Period size: 106 Copynumber: 5.4 Consensus size: 106
21490294 TTAAATATTC
* * *
21490304 TATTTT-ATTTTTAAATTACCTAATTAAACTAAATTATATTTAAAGTTTTATTTTGAATATGTTA
1 TATTTTAATTTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTAAATATTTTA
* *
21490368 TTTTATTTT-ATCTTAATCACGAAAAATATTTTGTCTACTTT
66 TTTGATTTTAAT-TTAATCACTAAAAATATTTTGTCTACTTT
*
21490409 TATTTT-ATTTTTAAACTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTAAATATTTTA
1 TATTTTAATTTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTAAATATTTTA
*
21490473 TTTGATTTTAATTTAATCACTAAAAATGTTTTGTCTACTTT
66 TTTGATTTTAATTTAATCACTAAAAATATTTTGTCTACTTT
*
21490514 TATTTTAATTTTTAAATTATCC-AATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTTT
1 TATTTTAATTTTTAAATTA-CCTAATTAAATTAAATTATATTTAAAGTTTTATTTTAAATATTTT
**
21490578 ATTTGATTTTAATTTAATCACTAAAAACGTTTTGTCTACTTT
65 ATTTGATTTTAATTTAATCACTAAAAATATTTTGTCTACTTT
* * * *
21490620 TATTTTAATTTTTAAATTACCTAATTAAACTAAATTGTATTTAAAGTTTTATTTTGAATATGTTA
1 TATTTTAATTTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTAAATATTTTA
* * * *
21490685 TTTTATTTTATTTTAATCTCGAAAAATA--TTGTCTACTTT
66 TTTGATTTTAATTTAATCACTAAAAATATTTTGTCTACTTT
*
21490724 TATTTT-ATTTTTAAATTACCTAATTAAATTAAATTGTATTTAAAGTTTTATTTTAAATATTTTA
1 TATTTTAATTTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTAAATATTTTA
* *
21490788 TTTGATTTTAATTTAATCACTATAAATATTTTATCTACTTT
66 TTTGATTTTAATTTAATCACTAAAAATATTTTGTCTACTTT
*
21490829 TATTTTAATTTTTAAATTATCTAATTAAATTAAATTAT
1 TATTTTAATTTTTAAATTACCTAATTAAATTAAATTAT
21490867 TTTTTTTAAA
Statistics
Matches: 421, Mismatches: 30, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
103 78 0.19
104 17 0.04
105 119 0.28
106 205 0.49
107 2 0.00
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.54
Consensus pattern (106 bp):
TATTTTAATTTTTAAATTACCTAATTAAATTAAATTATATTTAAAGTTTTATTTTAAATATTTTA
TTTGATTTTAATTTAATCACTAAAAATATTTTGTCTACTTT
Found at i:21491162 original size:18 final size:18
Alignment explanation
Indices: 21491136--21491429 Score: 105
Period size: 18 Copynumber: 16.5 Consensus size: 18
21491126 AAATATATAT
*
21491136 CATATCTTACATAATTTA
1 CATAACTTACATAATTTA
21491154 CATAACTTACATAA--TA
1 CATAACTTACATAATTTA
* * *
21491170 CATAAATT-TAT-ATAT-
1 CATAACTTACATAATTTA
*
21491185 CATATCTTACATAATTTA
1 CATAACTTACATAATTTA
** * * *
21491203 CATAAGATAAACAACTTA
1 CATAACTTACATAATTTA
* *
21491221 CATAATTTACATAACTTA
1 CATAACTTACATAATTTA
*
21491239 CATAA--TACAGAAGTATATA
1 CATAACTTACATAA-T-T-TA
*
21491258 TCATATCTTACATAATTTA
1 -CATAACTTACATAATTTA
* * * *
21491277 CATAAGATGA-ACAATTTG
1 CATAA-CTTACATAATTTA
* *
21491295 CATAATTTACATAACTTA
1 CATAACTTACATAATTTA
21491313 CATAA--TACATAGATATATA
1 CATAACTTACATA-AT-T-TA
* *
21491332 TCATATCGTACATAATTTA
1 -CATAACTTACATAATTTA
* *
21491351 CATAA-TTCCGATAACTTA
1 CATAACTTAC-ATAATTTA
*
21491369 CATAATTTACAT-ATCTTA
1 CATAACTTACATAAT-TTA
*
21491387 CATAA--TACATAA-ATA
1 CATAACTTACATAATTTA
* * * *
21491402 TATATCATATCATAACTTA
1 CATAACTTA-CATAATTTA
21491421 CATAACTTA
1 CATAACTTA
21491430 GTTATACTTA
Statistics
Matches: 203, Mismatches: 46, Indels: 53
0.67 0.15 0.18
Matches are distributed among these distances:
14 1 0.00
15 13 0.06
16 29 0.14
17 12 0.06
18 102 0.50
19 21 0.10
20 10 0.05
21 3 0.01
22 12 0.06
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (18 bp):
CATAACTTACATAATTTA
Found at i:21491167 original size:9 final size:9
Alignment explanation
Indices: 21491136--21491429 Score: 87
Period size: 9 Copynumber: 33.0 Consensus size: 9
21491126 AAATATATAT
*
21491136 CATATCTTA
1 CATAACTTA
*
21491145 CATAATTTA
1 CATAACTTA
21491154 CATAACTTA
1 CATAACTTA
21491163 CATAA--TA
1 CATAACTTA
*
21491170 CATAAATT-
1 CATAACTTA
*
21491178 TAT-A--TA
1 CATAACTTA
*
21491184 TCATATCTTA
1 -CATAACTTA
*
21491194 CATAATTTA
1 CATAACTTA
**
21491203 CATAAGATA
1 CATAACTTA
* *
21491212 AACAACTTA
1 CATAACTTA
*
21491221 CATAATTTA
1 CATAACTTA
21491230 CATAACTTA
1 CATAACTTA
21491239 CATAA--TA
1 CATAACTTA
* *
21491246 CAGAAGTATATA
1 CATAA--CT-TA
*
21491258 TCATATCTTA
1 -CATAACTTA
*
21491268 CATAATTTA
1 CATAACTTA
* *
21491277 CATAAGATGA
1 CATAA-CTTA
* * *
21491287 -ACAATTTG
1 CATAACTTA
*
21491295 CATAATTTA
1 CATAACTTA
21491304 CATAACTTA
1 CATAACTTA
21491313 CATAA--TA
1 CATAACTTA
*
21491320 CATAGATATATA
1 CATA-A-CT-TA
* *
21491332 TCATATCGTA
1 -CATAACTTA
*
21491342 CATAATTTA
1 CATAACTTA
*
21491351 CATAA-TTC
1 CATAACTTA
21491359 CGATAACTTA
1 C-ATAACTTA
*
21491369 CATAATTTA
1 CATAACTTA
*
21491378 CATATCTTA
1 CATAACTTA
21491387 CATAA--TA
1 CATAACTTA
*
21491394 CATAA-ATA
1 CATAACTTA
* * *
21491402 TATATCATA
1 CATAACTTA
21491411 TCATAACTTA
1 -CATAACTTA
21491421 CATAACTTA
1 CATAACTTA
21491430 GTTATACTTA
Statistics
Matches: 209, Mismatches: 50, Indels: 52
0.67 0.16 0.17
Matches are distributed among these distances:
5 1 0.00
7 29 0.14
8 12 0.06
9 138 0.66
10 17 0.08
11 1 0.00
12 4 0.02
13 7 0.03
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (9 bp):
CATAACTTA
Found at i:21491290 original size:74 final size:73
Alignment explanation
Indices: 21491141--21491412 Score: 368
Period size: 74 Copynumber: 3.6 Consensus size: 73
21491131 TATATCATAT
*
21491141 CTTACATAATTTACATAACTTACATAATACATAAATTTATATATCATATCTTACATAATTTACAT
1 CTTACATAATTTACATAACTTACATAATAC--AAA-GTATATATCATATCTTACATAATTTACAT
*
21491206 AAGATAAACAA
63 AAGATGAACAA
21491217 CTTACATAATTTACATAACTTACATAATACAGAAGTATATATCATATCTTACATAATTTACATAA
1 CTTACATAATTTACATAACTTACATAATACA-AAGTATATATCATATCTTACATAATTTACATAA
21491282 GATGAACAA
65 GATGAACAA
* * * *
21491291 TTTGCATAATTTACATAACTTACATAATACATAGATATATATCATATCGTACATAATTTACATAA
1 CTTACATAATTTACATAACTTACATAATACAAAG-TATATATCATATCTTACATAATTTACATAA
* *
21491356 -TTCCG-ATAA
65 GAT--GAACAA
* *
21491365 CTTACATAATTTACATATCTTACATAATACATAAATATATATCATATC
1 CTTACATAATTTACATAACTTACATAATACA-AAGTATATATCATATC
21491413 ATAACTTACA
Statistics
Matches: 178, Mismatches: 13, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
73 3 0.02
74 141 0.79
75 4 0.02
76 30 0.17
ACGTcount: A:0.45, C:0.15, G:0.03, T:0.37
Consensus pattern (73 bp):
CTTACATAATTTACATAACTTACATAATACAAAGTATATATCATATCTTACATAATTTACATAAG
ATGAACAA
Found at i:21495483 original size:47 final size:46
Alignment explanation
Indices: 21495429--21495726 Score: 349
Period size: 47 Copynumber: 6.4 Consensus size: 46
21495419 TTAGGATTCT
* * * *
21495429 ATGTGATGGATGTGAACA-TGCATATATGAGCTAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTG-TAAGGCCTAATGGCCG
*
21495476 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCAG
1 ATGTGATGAATGTGAAAGTGTATATATGTG-TAAGGCCTAATGGCCG
* * *
21495523 ATGTGATGAATGTGAAAGTGTATATATGTG-ACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGTA-A-GGCCTAATGGCCG
* *
21495570 ACGTGATGGATGTGAAAGTGTATA-A----TAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGTAAGGCCTAATGGCCG
*
21495611 ATGTGATGAATGTGAAAGTGTATATATGTGAATAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGTA-AGGCCTAATGGCCG
*
21495658 ATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTG-TAAGGCCTAATGGCCG
21495707 ATGTGATGAATGTGATAAGT
1 ATGTGATGAATGTGA-AAGT
21495727 CCCGAAGGGC
Statistics
Matches: 217, Mismatches: 20, Indels: 25
0.83 0.08 0.10
Matches are distributed among these distances:
41 32 0.15
42 2 0.01
43 1 0.00
45 1 0.00
46 4 0.02
47 134 0.62
49 38 0.18
50 5 0.02
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (46 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGTAAGGCCTAATGGCCG
Found at i:21495504 original size:25 final size:25
Alignment explanation
Indices: 21495476--21495553 Score: 72
Period size: 25 Copynumber: 3.2 Consensus size: 25
21495466 CTAATAGCCG
21495476 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ** *
21495501 ATGTGAT-AAGGCCTAA-TG-GCAG
1 ATGTGATGAATGTGAAAGTGTATAT
21495523 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
21495548 ATGTGA
1 ATGTGA
21495554 CAGGGCCGAG
Statistics
Matches: 36, Mismatches: 14, Indels: 6
0.64 0.25 0.11
Matches are distributed among these distances:
22 8 0.22
23 7 0.19
24 7 0.19
25 14 0.39
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:21495612 original size:135 final size:137
Alignment explanation
Indices: 21495460--21495726 Score: 423
Period size: 135 Copynumber: 2.0 Consensus size: 137
21495450 ATATATGAGC
21495460 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTG-ATAAGGCCTAATGGCAGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAAT-AGGCCTAATGGCAGA
* *
21495524 TGTGATGAATGTGAAAGTG-TATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGA-AA
65 TGTGATGAATGTGAAAGTGATATATATGTGACAGGGCCGAATGGCCAACGTGATGAATGTGATAA
21495587 GTGTATAA
130 GTGTATAA
* *
21495595 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGCCTAATGGCCGAT
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGCCTAATGGCAGAT
* * * *
21495660 GTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGATAA
66 GTGATGAATGTGAAAGTG-ATATATATGTGACAGGGCCGAATGGCCAACGTGATGAATGTGATAA
21495725 GT
130 GT
21495727 CCCGAAGGGC
Statistics
Matches: 120, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
135 78 0.65
136 2 0.02
137 36 0.30
138 4 0.03
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (137 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGCCTAATGGCAGAT
GTGATGAATGTGAAAGTGATATATATGTGACAGGGCCGAATGGCCAACGTGATGAATGTGATAAG
TGTATAA
Found at i:21495629 original size:88 final size:90
Alignment explanation
Indices: 21495478--21495726 Score: 306
Period size: 88 Copynumber: 2.7 Consensus size: 90
21495468 AATAGCCGAT
*
21495478 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCAGATGTGATGAATGTGAAAGTG
1 GTGATGAATGTGAAAGTG-ATATA--T-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
21495543 TATATATGTGACA-GGGCCGAGTGGCCAAC
62 TATATATGTGA-ATAGGCCGAATGGCCAAC
*
21495572 GTGATGGATGTGAAAGTG-TATA-ATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 GTGATGAATGTGAAAGTGATATATATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * *
21495635 TATGTGAATAGGCCTAATGGCCGAT
66 TATGTGAATAGGCCGAATGGCCAAC
21495660 GTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGATAA
1 GTGATGAATGTGAAAGTG-ATATATA--T-A-A-GGCCTAATGGCCGATGTGATGAATGTGA-AA
21495725 GT
59 GT
21495727 CCCGAAGGGC
Statistics
Matches: 137, Mismatches: 8, Indels: 17
0.85 0.05 0.10
Matches are distributed among these distances:
87 1 0.01
88 75 0.55
90 4 0.03
91 1 0.01
92 4 0.03
93 1 0.01
94 18 0.13
95 1 0.01
96 28 0.20
97 4 0.03
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (90 bp):
GTGATGAATGTGAAAGTGATATATATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGAATAGGCCGAATGGCCAAC
Found at i:21495901 original size:37 final size:37
Alignment explanation
Indices: 21495844--21495922 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
21495834 CCGAGCTCTA
* * *
21495844 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
**
21495881 AAGACCCGATAACTTTGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
21495918 AAGAC
1 AAGAC
21495923 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:21500601 original size:21 final size:21
Alignment explanation
Indices: 21500562--21500669 Score: 94
Period size: 21 Copynumber: 5.1 Consensus size: 21
21500552 ACTTAGAGCG
* **
21500562 GAGGCAGCAGAGACAGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
* *
21500583 GCGGCAGCAGCGAGGGAGGTA
1 GAGGCAGCAGCGAGGGAGGCA
* * * *
21500604 GCGACAGCAGTGAAGGAGGCA
1 GAGGCAGCAGCGAGGGAGGCA
21500625 GAGGCA-CGAGCGAGGGAGGCA
1 GAGGCAGC-AGCGAGGGAGGCA
*
21500646 GAGGCAGTAGCGAGGGCA-GCA
1 GAGGCAGCAGCGAGGG-AGGCA
21500667 GAG
1 GAG
21500670 CAGAGCAAAA
Statistics
Matches: 70, Mismatches: 14, Indels: 6
0.78 0.16 0.07
Matches are distributed among these distances:
20 1 0.01
21 68 0.97
22 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.48, T:0.03
Consensus pattern (21 bp):
GAGGCAGCAGCGAGGGAGGCA
Found at i:21500925 original size:32 final size:31
Alignment explanation
Indices: 21500889--21500963 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
21500879 TTAGAATTAA
* *
21500889 TGTTTTTGGTTGTATTTTTATGCTAAATTTGC
1 TGTTTTTGGTTGCA-TTTTATACTAAATTTGC
* * *
21500921 TGTTTTTGGCTGCATTTTATACTATATTTGT
1 TGTTTTTGGTTGCATTTTATACTAAATTTGC
*
21500952 TGTATTTGGTTG
1 TGTTTTTGGTTG
21500964 GAATTTAATG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 24 0.67
32 12 0.33
ACGTcount: A:0.15, C:0.07, G:0.20, T:0.59
Consensus pattern (31 bp):
TGTTTTTGGTTGCATTTTATACTAAATTTGC
Found at i:21501124 original size:43 final size:43
Alignment explanation
Indices: 21501043--21501124 Score: 110
Period size: 43 Copynumber: 1.9 Consensus size: 43
21501033 TTTGTGGGAA
* ** *
21501043 AAACGCCACTAAAAGGCATGGCTTTTAGCGGTGCTTTTTCAAC
1 AAACGCCACTAAAAGCCATAACTTTTAGCGGCGCTTTTTCAAC
* *
21501086 AAACGCCGCTAAAAGCCATAACTTTTAGCGGCGTTTTTT
1 AAACGCCACTAAAAGCCATAACTTTTAGCGGCGCTTTTT
21501125 TTAAATAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 33 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
AAACGCCACTAAAAGCCATAACTTTTAGCGGCGCTTTTTCAAC
Found at i:21501582 original size:21 final size:21
Alignment explanation
Indices: 21501556--21501598 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
21501546 ATTATTTCAG
21501556 AGTAAGATTTGAGTACTGAGA
1 AGTAAGATTTGAGTACTGAGA
21501577 AGTAAGATTTGAGTACTGAGA
1 AGTAAGATTTGAGTACTGAGA
21501598 A
1 A
21501599 ACTCTAGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.28, T:0.28
Consensus pattern (21 bp):
AGTAAGATTTGAGTACTGAGA
Found at i:21511248 original size:50 final size:50
Alignment explanation
Indices: 21511008--21511238 Score: 259
Period size: 50 Copynumber: 4.6 Consensus size: 50
21510998 CTGGTACGTA
* * * * *
21511008 TAGTAGCCTACACTTAGTACTACACATGCGACCTAACAATTTGGTACATG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTAGTACACG
* * * *
21511058 TAGTAGCCTGCACTTTGTACTACACACGTGAACTAACCATCT-GATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTAG-TACACG
* * * * * *
21511108 TAGTAGCCTGCACTTAGTACTACACACGTGA-TTGAACCTATCGAGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCT-AA-CAATCTAGTACACG
* **
21511159 TAGTAGCCTGCAGTTAGTACTACACATGAAACCTAACAATCTAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTAGTACACG
21511209 TAGTAGCCTGCACTTAGTACTACACATGTG
1 TAGTAGCCTGCACTTAGTACTACACATGTG
21511239 TTCTCACAAT
Statistics
Matches: 150, Mismatches: 26, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
49 2 0.01
50 109 0.73
51 37 0.25
52 2 0.01
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCTAACAATCTAGTACACG
Found at i:21511402 original size:13 final size:13
Alignment explanation
Indices: 21511384--21511410 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21511374 GCTACATCTC
21511384 ATATAATAACAAA
1 ATATAATAACAAA
21511397 ATATAATAACAAA
1 ATATAATAACAAA
21511410 A
1 A
21511411 AAAAAGAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.22
Consensus pattern (13 bp):
ATATAATAACAAA
Found at i:21529119 original size:58 final size:58
Alignment explanation
Indices: 21529029--21529145 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
21529019 ATGAGTGCGA
*
21529029 GTAAGTCCATGGCATCAATTTGTGATTTCGATATGTGTTTATGAGTAAGACCCTGTCT
1 GTAAGTCCATGGCATCAATTTGTGATTTCGATATGTGTTTATGAGTAAAACCCTGTCT
21529087 GTAAGTCCATGGCATCAATTTGTGATTTCGATATGTGTTTATGAGTAAAACCCTGTCT
1 GTAAGTCCATGGCATCAATTTGTGATTTCGATATGTGTTTATGAGTAAAACCCTGTCT
21529145 G
1 G
21529146 GGACAATGGC
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (58 bp):
GTAAGTCCATGGCATCAATTTGTGATTTCGATATGTGTTTATGAGTAAAACCCTGTCT
Found at i:21530873 original size:59 final size:59
Alignment explanation
Indices: 21530781--21531020 Score: 471
Period size: 59 Copynumber: 4.1 Consensus size: 59
21530771 TAGCTTGTGA
21530781 TAGTCGAATAGCTATAGAATGGAACAGATTTTCTTTGTATATTCCTAAATGTTTGACTT
1 TAGTCGAATAGCTATAGAATGGAACAGATTTTCTTTGTATATTCCTAAATGTTTGACTT
21530840 TAGTCGAATAGCTATAGAATGGAACAGATTTTCTTTGTATATTCCTAAATGTTTGACTT
1 TAGTCGAATAGCTATAGAATGGAACAGATTTTCTTTGTATATTCCTAAATGTTTGACTT
21530899 TAGTCGAATAGCTATAGAATGGAACAGATTTTCTTTGTATATTCCTAAATGTTTGACTT
1 TAGTCGAATAGCTATAGAATGGAACAGATTTTCTTTGTATATTCCTAAATGTTTGACTT
*
21530958 TAGTCGAATAGCTATAGAATGGAACAGATTTTCTTTGTATATTCCTAAATGTTTGTCTT
1 TAGTCGAATAGCTATAGAATGGAACAGATTTTCTTTGTATATTCCTAAATGTTTGACTT
21531017 TAGT
1 TAGT
21531021 TTGTGTAATT
Statistics
Matches: 180, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
59 180 1.00
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (59 bp):
TAGTCGAATAGCTATAGAATGGAACAGATTTTCTTTGTATATTCCTAAATGTTTGACTT
Found at i:21532107 original size:20 final size:20
Alignment explanation
Indices: 21532082--21532131 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
21532072 GGTTCTTGAT
21532082 GATTGCTACATCGATGACTC
1 GATTGCTACATCGATGACTC
21532102 GATTGCTACATCGATGACTC
1 GATTGCTACATCGATGACTC
21532122 GATTGCTACA
1 GATTGCTACA
21532132 GAAAGATGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (20 bp):
GATTGCTACATCGATGACTC
Found at i:21539900 original size:6 final size:6
Alignment explanation
Indices: 21539882--21539926 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
21539872 AAAGAAAGAT
* *
21539882 AAAATG AAAATA AAGATA AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
21539927 TAGATGGACT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:21539903 original size:12 final size:11
Alignment explanation
Indices: 21539867--21539926 Score: 66
Period size: 12 Copynumber: 5.2 Consensus size: 11
21539857 CTTCAAAAAT
*
21539867 AAATAAAAGAA
1 AAATAAAATAA
* *
21539878 AGATAAAATGA
1 AAATAAAATAA
21539889 AAATAAAGATAA
1 AAATAAA-ATAA
21539901 AAATAAAAATAA
1 AAAT-AAAATAA
21539913 AAATAAAAATAA
1 AAAT-AAAATAA
21539925 AA
1 AA
21539927 TAGATGGACT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
11 14 0.33
12 25 0.60
13 3 0.07
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:21539909 original size:18 final size:18
Alignment explanation
Indices: 21539867--21539926 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
21539857 CTTCAAAAAT
*
21539867 AAAT-AAAAGAAAGAT-A
1 AAATAAAAATAAAGATAA
*
21539883 AAATGAAAATAAAGATAA
1 AAATAAAAATAAAGATAA
*
21539901 AAATAAAAATAAAAATAA
1 AAATAAAAATAAAGATAA
21539919 AAATAAAA
1 AAATAAAA
21539927 TAGATGGACT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
16 4 0.10
17 10 0.26
18 25 0.64
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (18 bp):
AAATAAAAATAAAGATAA
Found at i:21541719 original size:15 final size:14
Alignment explanation
Indices: 21541699--21541762 Score: 60
Period size: 15 Copynumber: 4.4 Consensus size: 14
21541689 AGAAGAAAGG
21541699 GAAAGAAGGAGAAAA
1 GAAAGAA-GAGAAAA
*
21541714 GAAAGAA-AGAAGCGA
1 GAAAGAAGAGAA--AA
21541729 GAAAGAA-AGAAAAA
1 GAAAGAAGAG-AAAA
21541743 GAAAGTAAGAGAAAA
1 GAAAG-AAGAGAAAA
21541758 GAAAG
1 GAAAG
21541763 GGAAGGGGGT
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
13 4 0.10
14 6 0.14
15 28 0.67
16 4 0.10
ACGTcount: A:0.67, C:0.02, G:0.30, T:0.02
Consensus pattern (14 bp):
GAAAGAAGAGAAAA
Found at i:21541721 original size:19 final size:19
Alignment explanation
Indices: 21541699--21541740 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
21541689 AGAAGAAAGG
21541699 GAAAGAAG-GAGAAAAGAAA
1 GAAAGAAGCGAG-AAAGAAA
21541718 GAAAGAAGCGAGAAAGAAA
1 GAAAGAAGCGAGAAAGAAA
21541737 GAAA
1 GAAA
21541741 AAGAAAGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (19 bp):
GAAAGAAGCGAGAAAGAAA
Found at i:21541743 original size:25 final size:25
Alignment explanation
Indices: 21541715--21541762 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
21541705 AGGAGAAAAG
*
21541715 AAAGAAAG-AAGCGAGAAAGAAAGAA
1 AAAGAAAGTAAGAGA-AAAGAAAGAA
21541740 AAAGAAAGTAAGAGAAAAGAAAG
1 AAAGAAAGTAAGAGAAAAGAAAG
21541763 GGAAGGGGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.69, C:0.02, G:0.27, T:0.02
Consensus pattern (25 bp):
AAAGAAAGTAAGAGAAAAGAAAGAA
Found at i:21542390 original size:165 final size:165
Alignment explanation
Indices: 21542089--21542390 Score: 450
Period size: 165 Copynumber: 1.8 Consensus size: 165
21542079 CACGCCCGTA
* * *
21542089 TGTCTGAACACACGGCCGTGTGCCTTGCCCGTGTGGCTTCCTGACTTAATTAAAATTTGAAAGTT
1 TGTCCGAACACACGGCCGTGTGCCTTGCCCGTATGGCTTCCTGACTTAATTAAAATTTCAAAGTT
** * * *
21542154 AAGCTCCAATTTTCACATGGCCTTGGACCTGCCCATGTGGTTAGGCCGTGTGGTGTACACGGTCG
66 AAGCTCCAATTTTCACACAGCCTTGGACCTGCCCATGTGGTCAGGCCGTGTGGTGTACACGCTCA
21542219 TGTCGCACGCCCGTGTGGTATTTTGCACTTTTGTG
131 TGTCGCACGCCCGTGTGGTATTTTGCACTTTTGTG
21542254 TGTCCGAACACACGGCCGTGTGCCTTGCCCGTATGGCTTCCTGACTTAATTAAAATTTCAAAGTT
1 TGTCCGAACACACGGCCGTGTGCCTTGCCCGTATGGCTTCCTGACTTAATTAAAATTTCAAAGTT
* *
21542319 AAGCTCCAGTTTTCACACAGCCTTGGACAC-GCCCGTGT-GTCCAGGCCGTGTGCGT-TACACAG
66 AAGCTCCAATTTTCACACAGCCTTGGAC-CTGCCCATGTGGT-CAGGCCGTGTG-GTGTACAC-G
21542381 CT-ATGTCGCA
127 CTCATGTCGCA
21542391 TGGCTGTGTG
Statistics
Matches: 123, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
164 2 0.02
165 116 0.94
166 5 0.04
ACGTcount: A:0.19, C:0.26, G:0.25, T:0.30
Consensus pattern (165 bp):
TGTCCGAACACACGGCCGTGTGCCTTGCCCGTATGGCTTCCTGACTTAATTAAAATTTCAAAGTT
AAGCTCCAATTTTCACACAGCCTTGGACCTGCCCATGTGGTCAGGCCGTGTGGTGTACACGCTCA
TGTCGCACGCCCGTGTGGTATTTTGCACTTTTGTG
Found at i:21542674 original size:33 final size:32
Alignment explanation
Indices: 21542632--21542697 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 32
21542622 AGACTCCTCA
21542632 TTCCTGCTATCAAGCTTTTCAAAATAAGGGTTT
1 TTCCTGCTATCAAGCTTTTCAAAATAA-GGTTT
*
21542665 TTCCTGCTATCAATCTTTTCAAAATAAGGTTT
1 TTCCTGCTATCAAGCTTTTCAAAATAAGGTTT
21542697 T
1 T
21542698 AGACGAGTAC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 6 0.19
33 26 0.81
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.42
Consensus pattern (32 bp):
TTCCTGCTATCAAGCTTTTCAAAATAAGGTTT
Found at i:21544121 original size:24 final size:24
Alignment explanation
Indices: 21544085--21544132 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
21544075 CAGTTTCTTT
*
21544085 TCCTGCTGCTAAGGTGGTTGTTGA
1 TCCTGCTGATAAGGTGGTTGTTGA
21544109 TCCTGCTGATAAGGTGGTTGTTGA
1 TCCTGCTGATAAGGTGGTTGTTGA
21544133 AAACTCGGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.15, C:0.15, G:0.33, T:0.38
Consensus pattern (24 bp):
TCCTGCTGATAAGGTGGTTGTTGA
Found at i:21546529 original size:30 final size:30
Alignment explanation
Indices: 21546470--21546530 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
21546460 TTCCCAAGCC
*
21546470 TAGGGGCAAAAGTGTAAATATGCAGAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
* * * *
21546500 TAGGGGCAAAATTGTAATTTTTCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
21546530 T
1 T
21546531 GAGTTAAGGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATGCAAAAGTT
Found at i:21553812 original size:42 final size:43
Alignment explanation
Indices: 21553766--21553851 Score: 102
Period size: 42 Copynumber: 2.0 Consensus size: 43
21553756 ATTTATATAC
21553766 CACACGGCCTAGACACAAGCCCATGTCCT-TACCTGTGTGGTT
1 CACACGGCCTAGACACAAGCCCATGTCCTCTACCTGTGTGGTT
* * ** * * *
21553808 CACACGGCTTGGACACTTGCCTATGTTCTCTGCCTGTGTGGTT
1 CACACGGCCTAGACACAAGCCCATGTCCTCTACCTGTGTGGTT
21553851 C
1 C
21553852 CAGAACATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 23 0.64
43 13 0.36
ACGTcount: A:0.16, C:0.31, G:0.23, T:0.29
Consensus pattern (43 bp):
CACACGGCCTAGACACAAGCCCATGTCCTCTACCTGTGTGGTT
Found at i:21557793 original size:4 final size:4
Alignment explanation
Indices: 21557784--21557830 Score: 94
Period size: 4 Copynumber: 11.8 Consensus size: 4
21557774 ATACACAAAT
21557784 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
21557831 TTGCAACTCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:21562469 original size:31 final size:31
Alignment explanation
Indices: 21562431--21562489 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
21562421 GACGTCTTTT
* *
21562431 GATCCCCGAGCTAGCTTGGTGACGCTATTCC
1 GATCCCCGAGCTAGATTGGTGACACTATTCC
21562462 GATCCCCGAGCTAGATTGGTGACACTAT
1 GATCCCCGAGCTAGATTGGTGACACTAT
21562490 AAGAAAAGGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.20, C:0.29, G:0.25, T:0.25
Consensus pattern (31 bp):
GATCCCCGAGCTAGATTGGTGACACTATTCC
Found at i:21568234 original size:32 final size:32
Alignment explanation
Indices: 21568198--21568261 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
21568188 CGAACAAACA
21568198 CTCTTTCGAACACAGTAACTAACATGCAGCCT
1 CTCTTTCGAACACAGTAACTAACATGCAGCCT
*
21568230 CTCTTTCGTACACAGTAACTAACATGCAGCCT
1 CTCTTTCGAACACAGTAACTAACATGCAGCCT
21568262 TGCTTTAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.30, C:0.31, G:0.12, T:0.27
Consensus pattern (32 bp):
CTCTTTCGAACACAGTAACTAACATGCAGCCT
Found at i:21571111 original size:41 final size:41
Alignment explanation
Indices: 21571041--21571155 Score: 151
Period size: 41 Copynumber: 2.8 Consensus size: 41
21571031 ATGCTATCTC
* * *
21571041 ATACTGATGCC-ACTGTCCCAAACAGGGTCTTACACGAATCGA
1 ATAC-GATGCCGA-TGTCCCAAACATGGTCTTACACAAATCAA
* *
21571083 ATACGATGTCGATGTCCCAGACATGGTCTTACACAAATCAA
1 ATACGATGCCGATGTCCCAAACATGGTCTTACACAAATCAA
*
21571124 ATATGATGCCGATGTCCCAAACATGGTCTTAC
1 ATACGATGCCGATGTCCCAAACATGGTCTTAC
21571156 GTAACCACAT
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 59 0.92
42 5 0.08
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (41 bp):
ATACGATGCCGATGTCCCAAACATGGTCTTACACAAATCAA
Found at i:21571219 original size:45 final size:45
Alignment explanation
Indices: 21571097--21571259 Score: 171
Period size: 45 Copynumber: 3.8 Consensus size: 45
21571087 GATGTCGATG
* **
21571097 TCCCAGACA-TGGTCTTACAC-AAATCA-A-ATAT-GATGCCGATG
1 TCCCAGA-AGTGGTCTTACACGAAATCACATATATCGATGCCAACA
* * *
21571138 TCCCA-AACATGGTCTT--ACGTAACCACATATATCGATGCCAACA
1 TCCCAGAA-GTGGTCTTACACGAAATCACATATATCGATGCCAACA
21571181 TCCCAGAAGTGGTCTTACACGAAATCACATATATCGATGCCAACA
1 TCCCAGAAGTGGTCTTACACGAAATCACATATATCGATGCCAACA
* * *
21571226 TCTCAGACGTGGTCTTACACGAAATCACCTATAT
1 TCCCAGAAGTGGTCTTACACGAAATCACATATAT
21571260 TGAAATCCTA
Statistics
Matches: 102, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
39 3 0.03
40 5 0.05
41 13 0.13
42 4 0.04
43 19 0.19
44 2 0.02
45 56 0.55
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.25
Consensus pattern (45 bp):
TCCCAGAAGTGGTCTTACACGAAATCACATATATCGATGCCAACA
Done.